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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatgtccttgtatttatcttgaagcattgcattcatgcagtcatgtaaatagtactttatttatcttctgaccaacacactaataaccaaactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAACAGCCCGCCATCAGTCAGATTTACCTCTGAAATGTGGCATCCAAATG

Basic information

species Zea mays
transcript GRMZM2G085600_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085600_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g62244.1 (Oryza sativa), 3'ss of exon 2
-tgatgt-ccttgtatttatcttgaagcattg---cattcatgcagtcatgtaaatagtactttatttatcttctgaccaacacactaataaccaaactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAACAGCCCGCCATCAGTCAGATTTACCTCTGAAATGTGGCATCCAAATG
 |||| |  | | |||| |||||      |||     ||       | || ||||  || |||| |  | || |        ||| | | |   |   ||| |||||||||||| ||||| ||||||||||||||||| ||||| ||||| || ||||| || ||| | |||||||||||||| |||||||||||||||||||
ctgatttgtcatctattcatctttggtgtttgggctgttagcttgatgatctaaactgttctttctcaaactgcc--ttgtgacaatgacattta---ttttcagTGATGGAGGTTACTTTAATGCAATAATGAGCTTTCCACAGAATTATCCTAACAGTCCTCCAACTGTCAGATTTACCTCAGAAATGTGGCATCCAAATG

upper sequence: GRMZM2G085600_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G04470.2 (Glycine max), 3'ss of exon 2
---tgatgtccttgtatttatcttgaagcattgcattcatgcagtcatgtaaatagtactttatttatcttctgaccaacacactaataaccaaactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAACAGCCCGCCATCAGTCAGATTTACCTCTGAAATGTGGCATCCAAATG
   | || |  || || | |||||     || ||| |   |   | |  |  |  |  |  | |     |||| |      || |  |    |     || ||||| || || |  |||||||| || |||||||| ||||  || |||||||| || ||||||||||| | ||||||||| ||  | |||||||| ||||
attttattttgttttaatgatctt---ttatagcacttgagtttttagttttactgaccactctcggctttcttattttgtcaattttttgaatttcgtgtagTGAGGGGGGATTTTTCAATGCCATTATGAGCTTTCCACCCAACTACCCAAATAGTCCGCCATCAGTGAAATTTACCTCAGAGTTATGGCATCCCAATG

upper sequence: GRMZM2G085600_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0007g00120.t01 (Vitis vinifera), 3'ss of exon 2
---tgatgtccttgtatttatcttgaagcattgcattcatgcagtcatgtaaatagtactttatttatcttctgaccaacacactaataaccaaactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAACAGCCCGCCATCAGTCAGATTTACCTCTGAAATGTGGCATCCAAATG
   | |  |     |  |  | |   |  |||| || |    | | |||  ||  || |  |  ||    |||     ||  || |||   | |   |||||| ||||| || |  |||||||| || ||||| || ||||  ||||| || ||||| || |||||||| || |||||||| || ||||||||||| ||||
attttacatgagattgctgttttcacaaaattg-atgctcctattaatgccaaatgtgccattgttgctctcttttgtactgacaaattgtcta--cttgcagCGATGGGGGCTTTTTCAATGCTATTATGAGTTTTCCACCCAATTATCCCAACAGTCCTCCATCAGTGAGGTTTACCTCGGATATGTGGCATCCTAATG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211533490|gb|FK952750.1|FK952750
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211533484|gb|FK952744.1|FK952744
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211533493|gb|FK952753.1|FK952753
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211530484|gb|FK952736.1|FK952736
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATA                         TGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211313830|gb|FL083564.1|FL083564
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211533486|gb|FK952746.1|FK952746
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211315846|gb|FL083573.1|FL083573
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211530487|gb|FK952739.1|FK952739
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|74240335|gb|DT648249.1|DT648249
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATA                         TGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211530485|gb|FK952737.1|FK952737
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
EST: gi|211533485|gb|FK952745.1|FK952745
EST:     AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACTCTATA                         TGATGGAGGTTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA
genomic: AATGTCTTCGAGTGGCAGGTCACCATCATCGGACCGCCTGACACCCTATAgtgagtcaga ... aactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaatagtactttatttatcttctgaccaacacactaataaccaaactttgcagTGATGGAGGGTACTTCAATGCAATAATGAGCTTCCCACAAAATTACCCAAACAGCCCGCCATCAGTCAGATTTACCTCTGAAATGTGGCATCCAAATG
                                    taataac  putative branch site (score: 1)
     tagtactttatttat  TA-rich tract